ArticlePloS one2013
Genome-Wide Analysis of Differentially Expressed Genes Relevant to Rhizome Formation in Lotus Root (Nelumbo nucifera Gaertn).
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- The genetic and developmental enigma of rhizomes: crucial traits with limited understanding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Breeding Potential for Increasing Carbon Sequestration via Rhizomatous Grain Sorghum.Plants (Basel, Switzerland) · 2025Article
- Understanding the Saffron Corm Development-Insights into Histological and Metabolic Aspects.Plants (Basel, Switzerland) · 2024Article
- Hormones and carbohydrates synergistically regulate the formation of swollen roots in a Chinese cabbage translocation line.Horticulture research · 2023Article
- Identification of QTLs and a putative candidate gene involved in rhizome enlargement of Asian lotus (Nelumbo nucifera).Plant molecular biology · 2022Article
- Integrated mRNA and Small RNA Sequencing Reveals a microRNA Regulatory Network Associated with Starch Biosynthesis in Lotus (International journal of molecular sciences · 2022Article
- Studies on Lotus Genomics and the Contribution to Its Breeding.International journal of molecular sciences · 2022Review
- Article
- Expression rewiring and methylation of non-coding RNAs involved in rhizome phenotypic variations of lotus ecotypes.Computational and structural biotechnology journal · 2022Article
- Integration of Transcriptomic and Proteomic Profiles Reveals Multiple Levels of Genetic Regulation of Taproot Growth in Sugar Beet (Frontiers in plant science · 2022Article
- Genome-wide analysis of AP2/ERF superfamily in lotus (Nelumbo nucifera) and the association between NnADAP and rhizome morphology.BMC genomics · 2021Article
- Article
- Differential regulatory pathways associated with drought-inhibition and post-drought recuperation of rhizome development in perennial grass.Annals of botany · 2020Article
- The Control of Developmental Phase Transitions by microRNAs and Their Targets in Seed Plants.International journal of molecular sciences · 2020Review
- Integrated transcriptome and miRNA analysis uncovers molecular regulators of aerial stem-to-rhizome transition in the medical herb Gynostemma pentaphyllum.BMC genomics · 2019Article
- Proteomic analysis showing the signaling pathways involved in the rhizome enlargement process in Nelumbo nucifera.BMC genomics · 2019Article
- Transcription Profiles Reveal the Regulatory Synthesis of Phenols during the Development of Lotus Rhizome (International journal of molecular sciences · 2019Article
- A proteomics analysis of adventitious root formation after leaf removal in lotus (Nelumbo nucifera Gaertn.).Zeitschrift fur Naturforschung. C, Journal of biosciences · 2018Article
- Conservation of polypyrimidine tract binding proteins and their putative target RNAs in several storage root crops.BMC genomics · 2018Article
- Comparative proteomic analysis provides insight into a complex regulatory network of taproot formation in radish (Horticulture research · 2018Article
Corrections and comments
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5 authors.
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Abstract
Lotus root is a popular wetland vegetable which produces edible rhizome. At the molecular level, the regulation of rhizome formation is very complex, which has not been sufficiently addressed in research. In this study, to identify differentially expressed genes (DEGs) in lotus root, four libraries (L1 library: stolon stage, L2 library: initial swelling stage, L3 library: middle swelling stage, L4: later swelling stage) were constructed from the rhizome development stages. High-throughput tag-sequencing technique was used which is based on Solexa Genome Analyzer Platform. Approximately 5.0 million tags were sequenced, and 4542104, 4474755, 4777919, and 4750348 clean tags including 151282, 137476, 215872, and 166005 distinct tags were obtained after removal of low quality tags from each library respectively. More than 43% distinct tags were unambiguous tags mapping to the reference genes, and 40% were unambiguous tag-mapped genes. From L1, L2, L3, and L4, total 20471, 18785, 23448, and 21778 genes were annotated, after mapping their functions in existing databases. Profiling of gene expression in L1/L2, L2/L3, and L3/L4 libraries were different among most of the selected 20 DEGs. Most of the DEGs in L1/L2 libraries were relevant to fiber development and stress response, while in L2/L3 and L3/L4 libraries, major of the DEGs were involved in metabolism of energy and storage. All up-regulated transcriptional factors in four libraries and 14 important rhizome formation-related genes in four libraries were also identified. In addition, the expression of 9 genes from identified DEGs was performed by qRT-PCR method. In a summary, this study provides a comprehensive understanding of gene expression during the rhizome formation in lotus root.
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